genome.fa.s7851.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1608033

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 962 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137849--1137880	2	16.0	2	100	0	64	50	0	0	50	1.00
1139443--1139754	162	1.9	162	92	1	509	40	13	16	30	1.86
1139581--1140179	182	3.3	182	90	1	905	40	14	16	28	1.88
1142455--1142493	19	2.1	19	95	0	69	20	38	15	25	1.92
1148072--1148127	22	2.7	21	83	10	62	30	23	17	28	1.97
1149663--1149706	21	2.1	21	83	8	54	11	34	15	38	1.84
1150674--1150884	65	3.3	64	84	5	239	30	25	16	27	1.97
1150674--1150902	64	3.5	64	82	6	232	29	25	17	27	1.97
1153519--1153609	18	4.9	18	81	5	119	26	31	21	19	1.98
1153519--1153613	38	2.6	38	88	6	133	25	30	22	22	1.99
1154382--1154517	64	2.1	64	87	4	193	25	20	20	33	1.97
1154398--1154538	64	2.2	65	91	3	223	21	20	23	34	1.96
1166262--1166300	18	2.2	18	95	0	69	53	0	38	7	1.30
1169712--1170234	55	9.6	55	88	4	411	30	25	15	28	1.96
1169712--1170220	110	4.7	108	86	5	577	31	24	16	27	1.96
1169777--1170220	161	2.7	160	86	6	574	31	25	15	27	1.96
1170220--1170302	37	2.2	37	87	8	116	20	16	18	44	1.87
1171569--1171631	16	4.1	15	78	11	56	7	15	0	76	1.01
1171578--1171686	50	2.2	49	81	12	125	9	16	0	74	1.06
1171580--1171685	9	12.7	9	71	18	79	9	15	0	75	1.04
1171575--1171702	68	1.9	67	87	10	190	8	17	0	74	1.06
1171581--1171686	8	12.9	8	73	21	78	9	16	0	74	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181333--1181443	45	2.3	47	86	7	145	40	18	9	30	1.84
1184477--1184525	19	2.6	19	96	0	89	32	2	10	55	1.45
1184877--1186033	200	5.8	200	85	3	1420	36	13	17	31	1.89
1186366--1186856	199	2.5	199	91	1	790	37	13	16	32	1.88
1187588--1187632	19	2.4	19	92	0	72	37	4	4	53	1.41
1190112--1190813	199	3.5	198	80	8	748	38	13	15	32	1.86
1190831--1190993	87	1.9	87	89	0	254	31	14	11	42	1.81
1190915--1190959	23	2.0	23	90	0	72	37	17	8	35	1.81
1197696--1198055	180	2.0	180	100	0	720	32	27	13	26	1.94
1199998--1200082	38	2.2	38	91	4	136	50	11	4	32	1.60
1202761--1202794	13	2.6	13	95	0	59	55	11	5	26	1.58
1206255--1206302	23	2.1	23	88	0	69	35	12	18	33	1.89
1206669--1206707	20	2.0	20	89	0	60	48	10	15	25	1.76
1206711--1206780	22	3.2	22	83	4	79	40	22	4	32	1.74
1207126--1207196	21	3.3	21	73	13	63	39	21	4	35	1.73
1207145--1207201	23	2.6	23	86	5	73	38	17	5	38	1.72
1207554--1207605	23	2.3	22	90	6	77	44	19	1	34	1.62
1207564--1207626	23	2.7	23	90	0	90	38	19	4	38	1.73
1206369--1207823	423	3.5	428	94	4	2613	38	12	7	41	1.71
1208036--1208120	39	2.2	39	91	2	136	18	14	18	48	1.81
1208825--1208891	23	3.0	23	86	2	91	38	22	4	34	1.74
1211245--1211325	3	27.0	3	75	0	72	23	34	6	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211249--1211337	12	7.4	12	84	0	88	21	34	7	35	1.82
1211249--1211340	18	5.1	18	77	0	76	20	34	7	36	1.81
1211261--1211337	36	2.1	36	90	0	118	20	35	9	35	1.85
1211249--1211340	6	15.3	6	79	0	67	20	34	7	36	1.81
1212789--1213760	198	4.9	199	96	1	1763	31	16	15	36	1.90
1212789--1213760	398	2.4	397	96	1	1770	31	16	15	36	1.90
1213876--1213921	18	2.5	18	92	3	74	58	10	2	28	1.43
1215700--1215765	33	2.0	33	88	5	98	24	45	0	30	1.53
1215799--1215863	21	3.1	21	79	0	76	16	30	13	38	1.88
1218274--1218320	20	2.3	20	89	10	78	17	17	10	55	1.69
1218063--1218532	182	2.6	179	89	2	674	25	17	14	42	1.87
1218599--1219087	230	2.1	229	95	0	879	39	7	7	44	1.62
1225525--1225567	11	3.8	11	93	3	68	25	11	27	34	1.91
1230786--1230962	54	3.3	54	84	4	223	33	22	19	25	1.97
1237488--1237722	54	4.4	54	89	1	319	35	22	17	25	1.95
1238107--1238134	14	2.0	14	100	0	56	64	7	7	21	1.43
1239378--1239412	2	17.5	2	87	0	52	5	45	0	48	1.26
1250377--1250425	20	2.5	19	76	3	53	38	4	12	44	1.61
1259144--1259224	22	3.6	22	85	3	90	24	32	25	17	1.97
1259144--1259204	23	2.7	23	92	2	97	22	32	24	19	1.97
1261116--1261153	17	2.3	17	86	4	51	18	2	26	52	1.58
1263094--1263122	15	1.9	15	100	0	58	24	27	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270360--1270410	25	2.0	25	92	0	84	41	17	7	33	1.79
1271915--1271975	20	3.0	20	92	0	104	65	8	18	8	1.44
1273480--1273588	30	3.7	30	85	1	121	58	11	12	16	1.63
1273510--1273615	30	3.6	30	84	3	99	57	11	14	16	1.65
1273566--1273698	29	4.5	29	74	5	115	54	9	15	21	1.68
1275201--1275235	3	11.0	3	93	6	52	68	0	0	31	0.90
1276089--1276149	23	2.7	23	97	0	113	27	27	26	18	1.98
1278329--1278423	40	2.3	40	84	12	115	24	14	34	26	1.94
1278090--1278555	131	3.5	131	79	6	487	25	15	33	25	1.95
1278712--1278864	63	2.4	63	89	6	222	46	14	13	26	1.81
1284202--1284243	20	2.1	20	90	0	66	54	21	4	19	1.62
1287659--1287829	30	5.7	31	74	11	124	59	8	12	18	1.59
1287697--1287885	30	6.3	30	78	2	164	58	8	14	18	1.62
1287658--1287781	60	2.1	60	82	7	146	63	8	10	16	1.50
1287697--1287857	60	2.7	60	80	7	184	59	8	13	18	1.60
1287704--1287871	90	1.9	90	84	2	230	59	7	13	19	1.58
1288184--1288210	4	6.8	4	100	0	54	74	0	0	25	0.83
1288208--1288271	2	32.0	2	100	0	128	50	0	0	50	1.00
1289442--1289472	3	10.0	3	93	6	53	67	0	0	32	0.91
1289442--1289472	16	2.0	16	93	6	55	67	0	0	32	0.91
1311864--1311897	2	17.0	2	100	0	68	50	0	0	50	1.00
1312280--1312405	50	2.5	50	80	0	135	17	34	26	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312693--1313024	110	3.0	111	94	0	567	37	7	9	45	1.67
1318333--1318369	12	3.2	12	81	14	51	32	2	51	13	1.55
1318516--1318639	51	2.5	50	84	6	153	20	25	36	18	1.95
1319360--1319464	37	2.8	37	84	2	140	40	15	13	30	1.85
1320219--1320257	6	6.2	6	82	11	51	2	0	15	82	0.79
1320222--1320246	13	1.9	13	100	0	50	0	0	20	80	0.72
1320347--1320376	4	7.2	4	92	7	51	23	3	0	73	0.98
1320358--1320441	30	2.7	32	76	10	95	15	10	0	73	1.09
1324833--1324897	29	2.2	28	79	15	69	80	6	13	0	0.90
1324830--1324908	25	3.1	26	79	18	78	78	7	12	1	1.01
1324835--1324910	18	3.9	18	80	14	73	78	6	13	1	0.99
1324827--1324897	30	2.4	31	79	11	85	78	7	14	0	0.94
1324834--1324910	20	3.9	19	79	14	77	79	6	12	1	0.99
1326377--1327539	106	11.0	106	89	1	1624	34	24	17	23	1.96
1328238--1328342	37	2.8	37	85	2	140	40	15	13	30	1.85
1328837--1328893	18	3.3	17	76	18	55	29	1	1	66	1.12
1329176--1329201	2	13.0	2	100	0	52	50	0	0	50	1.00
1329218--1329299	30	2.7	31	79	5	87	13	9	0	76	1.01
1329234--1329283	12	4.5	11	76	18	50	10	10	0	80	0.92
1329214--1329292	34	2.3	34	80	10	90	13	8	0	77	0.99
1332695--1332744	16	3.0	16	82	5	64	82	14	4	0	0.82
1332695--1332746	26	1.9	28	92	7	90	82	13	3	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332694--1332754	27	2.2	28	85	8	90	78	13	4	3	1.03
1332695--1332747	10	4.9	10	77	22	54	83	13	3	0	0.79
1337818--1337894	32	2.4	32	86	0	109	53	27	9	10	1.65
1340514--1340552	13	3.0	13	84	0	51	61	0	0	38	0.96
1340513--1340552	16	2.5	16	87	0	53	60	0	0	40	0.97
1340722--1340855	32	4.2	31	70	7	90	39	24	14	21	1.90
1341180--1341218	20	2.0	20	100	0	78	35	5	5	53	1.45
1342103--1342157	18	3.0	18	80	15	67	27	3	5	63	1.33
1346643--1346676	15	2.3	15	89	0	50	58	2	29	8	1.43
1346833--1346872	14	2.9	14	92	3	64	32	0	45	22	1.53

Tables:   1   2   3   4   5   6   7   8   9